-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_3613885-3818062

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Valid prediction for snap_scaffold_14-snap.648-T1
Valid prediction for snap_scaffold_14-snap.622-T1
Valid prediction for snap_scaffold_14-snap.639-T1
Valid prediction for Augustus_model.g22452.t1
Valid prediction for CodingQuarry_transcript_15623-T1
Valid prediction for snap_scaffold_14-snap.653-T1
Valid prediction for snap_scaffold_14-snap.662-T1
Valid prediction for HiQ_model.g22442.t1
Valid prediction for Augustus_model.g22445.t1
Valid prediction for snap_scaffold_14-snap.658-T1
Valid prediction for snap_scaffold_14-snap.631-T1
Valid prediction for snap_scaffold_14-snap.630-T1
Valid prediction for Augustus_model.g22446.t1
Valid prediction for GlimmerHMM_glimmerT_33531-T1
Valid prediction for GlimmerHMM_glimmerT_33553-T1
Valid prediction for CodingQuarry_transcript_15624-T1
Valid prediction for snap_scaffold_14-snap.637-T1
Valid prediction for GlimmerHMM_glimmerT_33543-T1
Valid prediction for GlimmerHMM_glimmerT_33545-T1
Valid prediction for snap_scaffold_14-snap.626-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for pasa_asmbl_11959.p1
Valid prediction for GlimmerHMM_glimmerT_33539-T1
Valid prediction for snap_scaffold_14-snap.643-T1
Valid prediction for Augustus_model.g22443.t1
Valid prediction for GlimmerHMM_glimmerT_33557-T1
Valid prediction for snap_scaffold_14-snap.646-T1
Valid prediction for GlimmerHMM_glimmerT_33532-T1
Valid prediction for snap_scaffold_14-snap.642-T1
Valid prediction for GlimmerHMM_glimmerT_33550-T1
Couldn't classify 93293, 93442
Couldn't classify 94885, 95097
Sorry, prediction pasa_asmbl_11960.p1 fails validation.
(CTG)	 CT	93293-93442	GT	CTG
(GAG)	 AG	94885-95097	GA	CCG
Valid prediction for snap_scaffold_14-snap.619-T1
Valid prediction for GlimmerHMM_glimmerT_33547-T1
Valid prediction for GlimmerHMM_glimmerT_33541-T1
Valid prediction for snap_scaffold_14-snap.667-T1
Valid prediction for GlimmerHMM_glimmerT_33565-T1
Valid prediction for GlimmerHMM_glimmerT_33549-T1
Valid prediction for Augustus_model.g22440.t1
Valid prediction for pasa_asmbl_11966.p1
Valid prediction for GlimmerHMM_glimmerT_33564-T1
Valid prediction for GlimmerHMM_glimmerT_33548-T1
Valid prediction for snap_scaffold_14-snap.669-T1
Valid prediction for snap_scaffold_14-snap.645-T1
Valid prediction for Augustus_model.g22435.t1
Couldn't classify 107644, 107761
Sorry, prediction pasa_asmbl_11961.p1 fails validation.
(GTG)	 AG	107644-107761	GT	AGG
(CGG)	 AG	108538-108665	GT	AGG
(GCC)	 AG	109280-109476	GT	AGG
(GAA)	 AG	109739-109871	GT	AGG
(GCG)	 AG	110001-110217	GT	GGG
(AGG)	 AG	110563-110699	GT	AGG
(GTG)	 AG	111318-111421	GT	AGG
(GAA)	 AG	111929-112121	GT	AGG
(GAC)	 AG	112397-112600	GT	AGG
(TTC)	 AG	113103-113228	GT	AGG
(AGT)	 AG	113429-113599	GT	AGG
(GTG)	 AG	113879-114079	GT	CGG
(GAG)	 AG	114934-115080	GT	CGG
(GGT)	 AG	115261-115413	GA	AGG
-recovered pasa_asmbl_11961.p1, terminal, 115261, 115413
-recovered pasa_asmbl_11961.p1, internal, 107644, 107761
-recovered pasa_asmbl_11961.p1, internal, 108538, 108665
-recovered pasa_asmbl_11961.p1, internal, 109280, 109476
-recovered pasa_asmbl_11961.p1, internal, 109739, 109871
-recovered pasa_asmbl_11961.p1, internal, 110001, 110217
-recovered pasa_asmbl_11961.p1, internal, 110563, 110699
-recovered pasa_asmbl_11961.p1, internal, 111318, 111421
-recovered pasa_asmbl_11961.p1, internal, 111929, 112121
-recovered pasa_asmbl_11961.p1, internal, 112397, 112600
-recovered pasa_asmbl_11961.p1, internal, 113103, 113228
-recovered pasa_asmbl_11961.p1, internal, 113429, 113599
-recovered pasa_asmbl_11961.p1, internal, 113879, 114079
-recovered pasa_asmbl_11961.p1, internal, 114934, 115080
Valid prediction for HiQ_model.g22451.t1
Valid prediction for snap_scaffold_14-snap.666-T1
Valid prediction for snap_scaffold_14-snap.635-T1
Valid prediction for snap_scaffold_14-snap.629-T1
Valid prediction for snap_scaffold_14-snap.633-T1

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)Valid prediction for snap_scaffold_14-snap.649-T1
Valid prediction for GlimmerHMM_glimmerT_33540-T1
Valid prediction for snap_scaffold_14-snap.652-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33558-T1
Valid prediction for GlimmerHMM_glimmerT_33537-T1
Valid prediction for snap_scaffold_14-snap.627-T1
Valid prediction for snap_scaffold_14-snap.660-T1
Valid prediction for GlimmerHMM_glimmerT_33562-T1
Valid prediction for GlimmerHMM_glimmerT_33551-T1
Valid prediction for Augustus_model.g22438.t1
Valid prediction for GlimmerHMM_glimmerT_33555-T1
Valid prediction for snap_scaffold_14-snap.651-T1
Valid prediction for snap_scaffold_14-snap.620-T1
Valid prediction for GlimmerHMM_glimmerT_33559-T1
Valid prediction for GlimmerHMM_glimmerT_33530-T1
Valid prediction for Augustus_model.g22441.t1
Valid prediction for GlimmerHMM_glimmerT_33563-T1
Valid prediction for snap_scaffold_14-snap.664-T1
Valid prediction for snap_scaffold_14-snap.659-T1
Valid prediction for GlimmerHMM_glimmerT_33566-T1
Valid prediction for Augustus_model.g22453.t1
Valid prediction for snap_scaffold_14-snap.640-T1
Valid prediction for Augustus_model.g22444.t1
Valid prediction for snap_scaffold_14-snap.625-T1
Valid prediction for snap_scaffold_14-snap.647-T1
Valid prediction for GlimmerHMM_glimmerT_33544-T1
Valid prediction for Augustus_model.g22436.t1
Valid prediction for Augustus_model.g22439.t1
Valid prediction for snap_scaffold_14-snap.634-T1
Valid prediction for snap_scaffold_14-snap.650-T1
Valid prediction for snap_scaffold_14-snap.641-T1
Valid prediction for snap_scaffold_14-snap.657-T1
Valid prediction for snap_scaffold_14-snap.655-T1
Valid prediction for GlimmerHMM_glimmerT_33529-T1
Valid prediction for GlimmerHMM_glimmerT_33538-T1
Valid prediction for GlimmerHMM_glimmerT_33536-T1
Valid prediction for Augustus_model.g22437.t1
Valid prediction for Augustus_model.g22448.t1
Valid prediction for snap_scaffold_14-snap.663-T1
Valid prediction for GlimmerHMM_glimmerT_33560-T1
Valid prediction for Augustus_model.g22433.t1
Valid prediction for GlimmerHMM_glimmerT_33535-T1
Valid prediction for snap_scaffold_14-snap.621-T1
Valid prediction for Augustus_model.g22434.t1
Valid prediction for GlimmerHMM_glimmerT_33556-T1
Valid prediction for GlimmerHMM_glimmerT_33542-T1
Valid prediction for snap_scaffold_14-snap.623-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33533-T1
Couldn't classify 81038, 81115
Sorry, prediction pasa_asmbl_13029.p1 fails validation.
(ACT)	 GG	81038-81115	GT	AGG
(CTG)	 AG	83028-83156	GT	AGG
(GCA)	 AG	83467-83590	GT	AGG
(GCG)	 AG	85486-85565	GT	TGG
(GAG)	 AG	85783-85881	GT	GTG
(ACC)	 AG	86210-86323	CA	AAC
-recovered pasa_asmbl_13029.p1, terminal, 86210, 86323
-recovered pasa_asmbl_13029.p1, internal, 83028, 83156
-recovered pasa_asmbl_13029.p1, internal, 83467, 83590
-recovered pasa_asmbl_13029.p1, internal, 85486, 85565
-recovered pasa_asmbl_13029.p1, internal, 85783, 85881
Valid prediction for GlimmerHMM_glimmerT_33546-T1
Valid prediction for Augustus_model.g22447.t1
Valid prediction for snap_scaffold_14-snap.636-T1
Valid prediction for snap_scaffold_14-snap.632-T1
Valid prediction for Augustus_model.g22449.t1
Valid prediction for snap_scaffold_14-snap.628-T1
Valid prediction for snap_scaffold_14-snap.644-T1
Valid prediction for GlimmerHMM_glimmerT_33552-T1
Valid prediction for GlimmerHMM_glimmerT_33561-T1
Valid prediction for snap_scaffold_14-snap.665-T1
Valid prediction for snap_scaffold_14-snap.654-T1
Valid prediction for GlimmerHMM_glimmerT_33554-T1
Valid prediction for GlimmerHMM_glimmerT_33534-T1
Valid prediction for snap_scaffold_14-snap.624-T1
Valid prediction for snap_scaffold_14-snap.656-T1
Valid prediction for snap_scaffold_14-snap.661-T1
Valid prediction for Augustus_model.g22450.t1
Valid prediction for snap_scaffold_14-snap.638-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12690, rend_intergenic: 5509  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19020, rend_intergenic: 15540  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26848, rend_intergenic: 21863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37596, rend_intergenic: 27197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39099, rend_intergenic: 37946  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54776, rend_intergenic: 54201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67199, rend_intergenic: 64828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86449, rend_intergenic: 83998  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91180, rend_intergenic: 86460  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95684, rend_intergenic: 92274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115718, rend_intergenic: 96585  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134151, rend_intergenic: 117426  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148043, rend_intergenic: 144745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171143, rend_intergenic: 166693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 204178
-exon list size: 541


building trellis

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-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 12690, rend_intergenic: 5509  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19020, rend_intergenic: 15540  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26848, rend_intergenic: 21863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37596, rend_intergenic: 27197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39099, rend_intergenic: 37946  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54776, rend_intergenic: 54201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67199, rend_intergenic: 64828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86449, rend_intergenic: 83998  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91180, rend_intergenic: 86460  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95684, rend_intergenic: 92274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115718, rend_intergenic: 96585  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134151, rend_intergenic: 117426  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148043, rend_intergenic: 144745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171143, rend_intergenic: 166693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 28 predictions persist after filtering for low support